Job ID = 14521361 SRX = SRX8952647 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13110312 spots for SRR12458239/SRR12458239.sra Written 13110312 spots for SRR12458239/SRR12458239.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:12 13110312 reads; of these: 13110312 (100.00%) were paired; of these: 6666427 (50.85%) aligned concordantly 0 times 5651574 (43.11%) aligned concordantly exactly 1 time 792311 (6.04%) aligned concordantly >1 times ---- 6666427 pairs aligned concordantly 0 times; of these: 292435 (4.39%) aligned discordantly 1 time ---- 6373992 pairs aligned 0 times concordantly or discordantly; of these: 12747984 mates make up the pairs; of these: 11987216 (94.03%) aligned 0 times 501345 (3.93%) aligned exactly 1 time 259423 (2.04%) aligned >1 times 54.28% overall alignment rate Time searching: 00:04:12 Overall time: 00:04:12 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1410390 / 6713513 = 0.2101 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:01:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:01:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:01:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:02:00: 1000000 INFO @ Sat, 15 Jan 2022 21:02:05: 2000000 INFO @ Sat, 15 Jan 2022 21:02:11: 3000000 INFO @ Sat, 15 Jan 2022 21:02:16: 4000000 INFO @ Sat, 15 Jan 2022 21:02:21: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:02:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:02:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:02:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:02:27: 6000000 INFO @ Sat, 15 Jan 2022 21:02:31: 1000000 INFO @ Sat, 15 Jan 2022 21:02:34: 7000000 INFO @ Sat, 15 Jan 2022 21:02:39: 2000000 INFO @ Sat, 15 Jan 2022 21:02:40: 8000000 INFO @ Sat, 15 Jan 2022 21:02:46: 3000000 INFO @ Sat, 15 Jan 2022 21:02:47: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:02:54: 10000000 INFO @ Sat, 15 Jan 2022 21:02:54: 4000000 INFO @ Sat, 15 Jan 2022 21:02:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:02:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:02:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:03:01: 11000000 INFO @ Sat, 15 Jan 2022 21:03:01: 1000000 INFO @ Sat, 15 Jan 2022 21:03:01: 5000000 INFO @ Sat, 15 Jan 2022 21:03:03: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:03:03: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:03:03: #1 total tags in treatment: 5064934 INFO @ Sat, 15 Jan 2022 21:03:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:03:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:03:03: #1 tags after filtering in treatment: 4132045 INFO @ Sat, 15 Jan 2022 21:03:03: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:03:03: #1 finished! INFO @ Sat, 15 Jan 2022 21:03:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:03:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:03:04: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:03:04: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:03:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:03:08: 2000000 INFO @ Sat, 15 Jan 2022 21:03:09: 6000000 INFO @ Sat, 15 Jan 2022 21:03:15: 3000000 INFO @ Sat, 15 Jan 2022 21:03:16: 7000000 INFO @ Sat, 15 Jan 2022 21:03:22: 4000000 INFO @ Sat, 15 Jan 2022 21:03:24: 8000000 INFO @ Sat, 15 Jan 2022 21:03:29: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:03:31: 9000000 INFO @ Sat, 15 Jan 2022 21:03:36: 6000000 INFO @ Sat, 15 Jan 2022 21:03:38: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:03:44: 7000000 INFO @ Sat, 15 Jan 2022 21:03:46: 11000000 INFO @ Sat, 15 Jan 2022 21:03:49: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:03:49: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:03:49: #1 total tags in treatment: 5064934 INFO @ Sat, 15 Jan 2022 21:03:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:03:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:03:49: #1 tags after filtering in treatment: 4132045 INFO @ Sat, 15 Jan 2022 21:03:49: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:03:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:03:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:03:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:03:49: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:03:49: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:03:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:03:51: 8000000 INFO @ Sat, 15 Jan 2022 21:03:58: 9000000 INFO @ Sat, 15 Jan 2022 21:04:04: 10000000 INFO @ Sat, 15 Jan 2022 21:04:11: 11000000 INFO @ Sat, 15 Jan 2022 21:04:13: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:04:13: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:04:13: #1 total tags in treatment: 5064934 INFO @ Sat, 15 Jan 2022 21:04:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:04:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:04:13: #1 tags after filtering in treatment: 4132045 INFO @ Sat, 15 Jan 2022 21:04:13: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:04:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:04:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:04:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:04:14: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:04:14: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:04:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952647/SRX8952647.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling